ncbi_search: Search NCBI databases for articles or data

In LBDiscover: Literature-Based Discovery Tools for Biomedical Research

Search NCBI databases for articles or data

Description

This function searches various NCBI databases using the E-utilities API via the rentrez package.

Usage

ncbi_search(
  query,
  database = "pubmed",
  max_results = 1000,
  use_mesh = FALSE,
  date_range = NULL,
  api_key = NULL,
  retry_count = 3,
  retry_delay = 2
)

Arguments

query	Character string containing the search query.
database	Character string. The NCBI database to search (e.g., "pubmed", "pmc", "gene", "protein").
max_results	Maximum number of results to return.
use_mesh	Logical. If TRUE, will attempt to map query terms to MeSH terms (for PubMed only).
date_range	Character vector of length 2 with start and end dates in format "YYYY/MM/DD".
api_key	Character string. NCBI API key for higher rate limits (optional).
retry_count	Integer. Number of times to retry failed requests.
retry_delay	Integer. Delay between retries in seconds.

Value

A data frame containing the search results with IDs, titles, and other metadata.

LBDiscover documentation built on June 16, 2025, 5:09 p.m.